IL_9D7S_213

3D structure

PDB id

9D7S (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.85A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.85 Å

Loop

Sequence

GGUAAAG*CGAAAAUGAUCGGGGC

Length

23 nucleotides

Bulged bases

9D7S|1|2A|U|1026, 9D7S|1|2A|A|1127, 9D7S|1|2A|U|1130

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

IL_9D7S_213 not in the Motif Atlas

Homologous match to IL_9DFE_039

Geometric discrepancy: 0.1146

The information below is about IL_9DFE_039

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_50715.4

Basepair signature

cWW-tSH-tHH-L-R-L-R-L-tWW-L-cWW-L-L-L-R-L

Number of instances in this motif group

4

Unit IDs

9D7S|1|2A|G|1024
9D7S|1|2A|G|1025
9D7S|1|2A|U|1026
9D7S|1|2A|A|1027
9D7S|1|2A|A|1028
9D7S|1|2A|A|1029
9D7S|1|2A|G|1030
*
9D7S|1|2A|C|1124
9D7S|1|2A|G|1125
9D7S|1|2A|A|1126
9D7S|1|2A|A|1127
9D7S|1|2A|A|1128
9D7S|1|2A|A|1129
9D7S|1|2A|U|1130
9D7S|1|2A|G|1131
9D7S|1|2A|A|1132
9D7S|1|2A|U|1133
9D7S|1|2A|C|1135
9D7S|1|2A|G|1136
9D7S|1|2A|G|1137
9D7S|1|2A|G|1138
9D7S|1|2A|G|1139
9D7S|1|2A|C|1140

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L36

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2E

50S ribosomal protein L3

Chain 2N

50S ribosomal protein L13

Chain 2Q

50S ribosomal protein L16